run_ceres: CERES main routine

In cancerdatasci/ceres: CERES for R

Description

CERES main routine

Usage

run_ceres(sg_data, cn_data, guide_locus, locus_gene, replicate_map, params,
  fit_efficacy = T)

Arguments

sg_data	matrix with sgRNA sequences as row names, samples (i.e. replicates of cell line screens) as column names.
cn_data	matrix with genomic cut sites as row names, cell lines as column names.
guide_locus	data.frame with column names 'Guide' and 'Locus'. Values must match those corresponding to row names of sg_data and cn_data.
locus_gene	data.frame with column names 'Locus' and 'Gene'.
replicate_map	data.frame with column names 'Replicate' and 'CellLine'
params	list of run parameters
fit_efficacy	boolean indicating whether sgRNA offsets and activity scores are computed

Value

A list of numeric vectors and matrices containing the results of the CERES fit.

cancerdatasci/ceres documentation built on May 20, 2019, 6:44 p.m.